def delete_request_type_permissions( id ):
rtps = sa_session.query( galaxy.model.RequestTypePermissions ) \
.filter( and_( galaxy.model.RequestTypePermissions.table.c.request_type_id==id ) ) \
.order_by( desc( galaxy.model.RequestTypePermissions.table.c.create_time ) )
for rtp in rtps:
sa_session.delete( rtp )
sa_session.flush()
def get_user_address( user, short_desc ):
return sa_session.query( galaxy.model.UserAddress ) \
.filter( and_( galaxy.model.UserAddress.table.c.user_id==user.id,
galaxy.model.UserAddress.table.c.desc==short_desc,
galaxy.model.UserAddress.table.c.deleted==False ) ) \
.order_by( desc( galaxy.model.UserAddress.table.c.create_time ) ) \
.first()
def get_library( name, description, synopsis ):
return sa_session.query( galaxy.model.Library ) \
.filter( and_( galaxy.model.Library.table.c.name==name,
galaxy.model.Library.table.c.description==description,
galaxy.model.Library.table.c.synopsis==synopsis,
galaxy.model.Library.table.c.deleted==False ) ) \
.first()
def get_form( name ):
fdc_list = sa_session.query( galaxy.model.FormDefinitionCurrent ) \
.filter( galaxy.model.FormDefinitionCurrent.table.c.deleted == False ) \
.order_by( galaxy.model.FormDefinitionCurrent.table.c.create_time.desc() )
for fdc in fdc_list:
sa_session.refresh( fdc )
sa_session.refresh( fdc.latest_form )
if fdc.latest_form.name == name:
return fdc.latest_form
return None
def get_group_by_name( name ):
return sa_session.query( galaxy.model.Group ).filter( galaxy.model.Group.table.c.name==name ).first()
def get_folder( parent_id, name, description ):
return sa_session.query( galaxy.model.LibraryFolder ) \
.filter( and_( galaxy.model.LibraryFolder.table.c.parent_id==parent_id,
galaxy.model.LibraryFolder.table.c.name==name,
galaxy.model.LibraryFolder.table.c.description==description ) ) \
.first()
def get_request_by_name( name ):
return sa_session.query( galaxy.model.Request ) \
.filter( and_( galaxy.model.Request.table.c.name==name,
galaxy.model.Request.table.c.deleted==False ) ) \
.first()
def get_latest_lddas( limit ):
return sa_session.query( galaxy.model.LibraryDatasetDatasetAssociation ) \
.order_by( desc( galaxy.model.LibraryDatasetDatasetAssociation.table.c.update_time ) ) \
.limit( limit )
def get_latest_hda():
return sa_session.query( galaxy.model.HistoryDatasetAssociation ) \
.order_by( desc( galaxy.model.HistoryDatasetAssociation.table.c.create_time ) ) \
.first()
def get_dataset_permissions_by_dataset( dataset ):
return sa_session.query( galaxy.model.DatasetPermissions ) \
.filter( galaxy.model.DatasetPermissions.table.c.dataset_id==dataset.id ) \
.all()
def get_all_histories_for_user( user ):
return sa_session.query( galaxy.model.History ) \
.filter( and_( galaxy.model.History.table.c.user_id==user.id,
galaxy.model.History.table.c.deleted==False ) ) \
.all()
def get_user_group_associations_by_group( group ):
return sa_session.query( galaxy.model.UserGroupAssociation ) \
.filter( galaxy.model.UserGroupAssociation.table.c.group_id == group.id ) \
.all()
def get_role_by_name( name ):
return sa_session.query( galaxy.model.Role ).filter( galaxy.model.Role.table.c.name==name ).first()
def get_request_type_by_name( name ):
return sa_session.query( galaxy.model.RequestType ) \
.filter( and_( galaxy.model.RequestType.table.c.name==name ) ) \
.order_by( desc( galaxy.model.RequestType.table.c.create_time ) ) \
.first()
def get_group_role_associations_by_role( role ):
return sa_session.query( galaxy.model.GroupRoleAssociation ) \
.filter( galaxy.model.GroupRoleAssociation.table.c.role_id == role.id ) \
.all()
def get_latest_dataset():
return sa_session.query( galaxy.model.Dataset ) \
.order_by( desc( galaxy.model.Dataset.table.c.create_time ) ) \
.first()
def get_dataset_permissions_by_role( role ):
return sa_session.query( galaxy.model.DatasetPermissions ) \
.filter( galaxy.model.DatasetPermissions.table.c.role_id == role.id ) \
.first()
def get_latest_history_for_user( user ):
return sa_session.query( galaxy.model.History ) \
.filter( and_( galaxy.model.History.table.c.deleted==False,
galaxy.model.History.table.c.user_id==user.id ) ) \
.order_by( desc( galaxy.model.History.table.c.create_time ) ) \
.first()
def get_default_history_permissions_by_history( history ):
return sa_session.query( galaxy.model.DefaultHistoryPermissions ) \
.filter( galaxy.model.DefaultHistoryPermissions.table.c.history_id==history.id ) \
.all()
def get_latest_ldda_by_name( name ):
return sa_session.query( galaxy.model.LibraryDatasetDatasetAssociation ) \
.filter( and_( galaxy.model.LibraryDatasetDatasetAssociation.table.c.name==name,
galaxy.model.LibraryDatasetDatasetAssociation.table.c.deleted == False ) ) \
.order_by( desc( galaxy.model.LibraryDatasetDatasetAssociation.table.c.create_time ) ) \
.first()
def get_default_user_permissions_by_role( role ):
return sa_session.query( galaxy.model.DefaultUserPermissions ) \
.filter( galaxy.model.DefaultUserPermissions.table.c.role_id == role.id ) \
.all()
def get_galaxy_user( email ):
return ga_session.query( galaxy.model.User ) \
.filter( galaxy.model.User.table.c.email==email ) \
.first()
def get_default_user_permissions_by_user( user ):
return sa_session.query( galaxy.model.DefaultUserPermissions ) \
.filter( galaxy.model.DefaultUserPermissions.table.c.user_id==user.id ) \
.all()